Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr09

Orthogroup ID

OG0012428

Physical Location & Seq

Genomic Coordinates Forward (+)

30978672 .. 30980536

Gene Structure 1865 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD09G1242800.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 273 bp

ATGGAACGACCGCGAAGAACATCCAAATTTATGACCAAATATGAACGTGCTAGAATATTGGGCACTCGTGCTGTGCAGATCAGCATGAATGCCCCTGTGATGGTTGAGTTGCAGGGTGAGACTGACCCACGTGAGATTGCTATGAAGGAGCTTCGTGAGCGGAAGGTACCCTTCACCATTTGCTGCTACCTGCCCGATGGAAGTTATGAAGATTGGGGAGTAGATGAGTTGATTGTGGAAGACTCGTGTAAGAGGCAAGTGGGAGGCGAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005666 GO:0005730 GO:0005736 GO:0006139 GO:0006351 GO:0006360 GO:0006366 GO:0006383 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016591 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05016 ko05169 map00230 map00240 map01100 map03020 map04623 map05016 map05169

Pfam Domains

Protein Families

RNA_pol_Rpb6

Protein Analysis

91

Amino Acids

10.44

Weight (kDa)

5.58

Isoelectric Point (pI)

42.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb6	PF01192	7 - 58	9.1e-11	RNA polymerase Rpb6

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0012428)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G04630 AT5G51940
fragaria_vesca	FvH4_2g14180
malus_domestica	MD09G1242800.v1.1 MD12G1011200.v1.1 MD17G1234800.v1.1
prunus_persica	Prupe.3G134400_v2.0.a1 Prupe.7G013200_v2.0.a1
pyrus_communis	pycom09g16110 pycom12g00870 pycom17g23820
rosa_chinensis	RchiOBHm_Chr6g0276321
rosa_laevigata	RLG00000013404
rosa_multiflora	Rmu_sc0003665.1_g000006
rosa_roxburghii	Rroxscaffold_7G00192390
rosa_rugosa	Rorug06G0099900 Rorug06G0100000
rosa_samantha	Rh6DG207900
rosa_wichuraiana	Rw6G018430

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	198
Acc65I	GGTACC	1 cut(s)	166
AccB1I	GGYRCC	1 cut(s)	166
AccBSI	CCGCTC	1 cut(s)	160
AccII	CGCG	1 cut(s)	13
AciI	CCGC	2 cut(s)	11, 160
AcsI	RAATTY	1 cut(s)	26
AcvI	CACGTG	1 cut(s)	131
AfaI	GTAC	1 cut(s)	168
AfiI	CCNNNNNNNGG	1 cut(s)	100
AluBI	AGCT	1 cut(s)	151
AluI	AGCT	1 cut(s)	151
Alw26I	GTCTC	1 cut(s)	113
ApeKI	GCWGC	1 cut(s)	183
ApoI	RAATTY	1 cut(s)	26
Asp718I	GGTACC	1 cut(s)	166
AsuHPI	GGTGA	2 cut(s)	128, 166
BaeGI	GKGCMC	1 cut(s)	65
BanI	GGYRCC	1 cut(s)	166
BauI	CACGAG	2 cut(s)	66, 244
BbrPI	CACGTG	1 cut(s)	131
BbsI	GAAGAC	1 cut(s)	246
BbvI	GCAGC	1 cut(s)	170
BccI	CCATC	2 cut(s)	94, 191
BcoDI	GTCTC	1 cut(s)	113
BfaI	CTAG	1 cut(s)	51
BfuAI	ACCTGC	1 cut(s)	198
BisI	GCNGC	1 cut(s)	184
BlsI	GCNGC	1 cut(s)	185
BmiI	GGNNCC	1 cut(s)	168
BpiI	GAAGAC	1 cut(s)	246
BsaAI	YACGTR	1 cut(s)	131
Bsc4I	CCNNNNNNNGG	1 cut(s)	100
BseGI	GGATG	1 cut(s)	20
BseLI	CCNNNNNNNGG	1 cut(s)	100
BseSI	GKGCMC	1 cut(s)	65
BseXI	GCAGC	1 cut(s)	170
BsgI	GTGCAG	1 cut(s)	95
Bsh1236I	CGCG	1 cut(s)	13
Bsh1285I	CGRYCG	1 cut(s)	11
BshNI	GGYRCC	1 cut(s)	166
BsiEI	CGRYCG	1 cut(s)	11
BslI	CCNNNNNNNGG	1 cut(s)	100
BsmAI	GTCTC	1 cut(s)	113
BsmI	GAATGC	1 cut(s)	94
Bsp1286I	GDGCHC	1 cut(s)	65
Bsp143I	GATC	1 cut(s)	78
BspACI	CCGC	2 cut(s)	11, 160
BspFNI	CGCG	1 cut(s)	13
BspLI	GGNNCC	1 cut(s)	168
BspMI	ACCTGC	1 cut(s)	198
BspT107I	GGYRCC	1 cut(s)	166
BsrBI	CCGCTC	1 cut(s)	160
BssMI	GATC	1 cut(s)	78
BssSI	CACGAG	2 cut(s)	66, 244
Bst2BI	CACGAG	2 cut(s)	66, 244
BstBAI	YACGTR	1 cut(s)	131
BstF5I	GGATG	1 cut(s)	20
BstFNI	CGCG	1 cut(s)	13
BstKTI	GATC	1 cut(s)	81
BstMAI	GTCTC	1 cut(s)	113
BstMBI	GATC	1 cut(s)	78
BstMCI	CGRYCG	1 cut(s)	11
BstMWI	GCNNNNNNNGC	1 cut(s)	157
BstSLI	GKGCMC	1 cut(s)	65
BstUI	CGCG	1 cut(s)	13
BstV1I	GCAGC	1 cut(s)	170
BstV2I	GAAGAC	1 cut(s)	246
BtsCI	GGATG	1 cut(s)	20
BveI	ACCTGC	1 cut(s)	198
Csp6I	GTAC	1 cut(s)	167
CviAII	CATG	1 cut(s)	85
CviJI	RGCY	1 cut(s)	151
CviKI_1	RGCY	1 cut(s)	151
CviQI	GTAC	1 cut(s)	167
DpnI	GATC	1 cut(s)	80
DpnII	GATC	1 cut(s)	78
Eco72I	CACGTG	1 cut(s)	131
FaeI	CATG	1 cut(s)	88
FaiI	YATR	5 cut(s)	32, 42, 86, 143, 207
FalI	AAGNNNNNCTT	2 cut(s)	155, 187
FatI	CATG	1 cut(s)	84
Fnu4HI	GCNGC	1 cut(s)	184
FokI	GGATG	1 cut(s)	7
Fsp4HI	GCNGC	1 cut(s)	184
FspBI	CTAG	1 cut(s)	51
GluI	GCNGC	1 cut(s)	184
Hin1II	CATG	1 cut(s)	88
HinfI	GANTC	1 cut(s)	242
HphI	GGTGA	2 cut(s)	128, 166
Hpy188III	TCNNGA	1 cut(s)	155
HpyAV	CCTTC	3 cut(s)	139, 157, 181
HpyCH4IV	ACGT	2 cut(s)	46, 130
HpyCH4V	TGCA	2 cut(s)	76, 112
HpyF10VI	GCNNNNNNNGC	1 cut(s)	157
HpySE526I	ACGT	2 cut(s)	46, 130
Hsp92II	CATG	1 cut(s)	88
KpnI	GGTACC	1 cut(s)	170
Kzo9I	GATC	1 cut(s)	78
LmnI	GCTCC	1 cut(s)	148
LpnPI	CCDG	3 cut(s)	98, 108, 203
Lsp1109I	GCAGC	1 cut(s)	170
MaeI	CTAG	1 cut(s)	51
MaeII	ACGT	2 cut(s)	46, 130
MalI	GATC	1 cut(s)	80
MbiI	CCGCTC	1 cut(s)	160
MboI	GATC	1 cut(s)	78
MboII	GAAGA	3 cut(s)	27, 221, 251
MhlI	GDGCHC	1 cut(s)	65
MluCI	AATT	1 cut(s)	26
MlyI	GAGTC	1 cut(s)	236
MnlI	CCTC	2 cut(s)	246, 257
Mva1269I	GAATGC	1 cut(s)	94
MvnI	CGCG	1 cut(s)	13
MwoI	GCNNNNNNNGC	1 cut(s)	157
NdeII	GATC	1 cut(s)	78
NlaIII	CATG	1 cut(s)	88
NlaIV	GGNNCC	1 cut(s)	168
PctI	GAATGC	1 cut(s)	94
PkrI	GCNGC	1 cut(s)	185
PleI	GAGTC	1 cut(s)	236
PmaCI	CACGTG	1 cut(s)	131
PmlI	CACGTG	1 cut(s)	131
PpsI	GAGTC	1 cut(s)	236
Ppu21I	YACGTR	1 cut(s)	131
PspCI	CACGTG	1 cut(s)	131
PspN4I	GGNNCC	1 cut(s)	168
RsaI	GTAC	1 cut(s)	168
RsaNI	GTAC	1 cut(s)	167
SatI	GCNGC	1 cut(s)	184
Sau3AI	GATC	1 cut(s)	78
SchI	GAGTC	1 cut(s)	236
SduI	GDGCHC	1 cut(s)	65
SetI	ASST	5 cut(s)	49, 133, 153, 168, 192
Sse9I	AATT	1 cut(s)	26
SsiI	CCGC	2 cut(s)	11, 160
SspI	AATATT	1 cut(s)	57
SspMI	CTAG	1 cut(s)	51
TaiI	ACGT	2 cut(s)	49, 133
TasI	AATT	1 cut(s)	26
TseI	GCWGC	1 cut(s)	183
TspDTI	ATGAA	4 cut(s)	57, 101, 158, 222
XapI	RAATTY	1 cut(s)	26
XspI	CTAG	1 cut(s)	51

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.